OpenRaiser/Intern-Atlas huggingface dataset:
TEDDY: A Family Of Foundation Models For Understanding Single Cell Biology
Venue: arXiv cs.LG 2025
Year: 2025

Understanding the biological mechanism of disease is critical for medicine, and in particular drug discovery. AI-powered analysis of genome-scale biological data hold great potential in this regard. The increasing availability of single-cell RNA sequencing data has enabled the development of large foundation models for disease biology. However, existing foundation models either do not improve or only modestly improve over task-specific models in downstream applications. Here, we explored two avenues for improving the state-of-the-art. First, we scaled the pre-training dataset to 116 million cells, which is larger than those used by previous models. Second, we leveraged the availability of large-scale biological annotations as a form of supervision during pre-training. We trained the TEDDY family of models comprising six transformer-based state-of-the-art single-cell foundation models with 70 million, 160 million, and 400 million parameters. We vetted our models on two downstream evaluation tasks -- identifying the underlying disease state of held-out donors not seen during training and distinguishing healthy cells from diseased ones for disease conditions and donors not seen during training. Scaling experiments showed that performance improved predictably with both data volume and parameter count. Our models showed substantial improvement over existing work on the first task and more muted improvements on the second.
Topo Goes Political: TDA-Based Controversy Detection in Imbalanced Reddit Political Data
Venue: arXiv cs.SI 2025
Year: 2025

The detection of controversial content in political discussions on the Internet is a critical challenge in maintaining healthy digital discourse. Unlike much of the existing literature that relies on synthetically balanced data, our work preserves the natural distribution of controversial and non-controversial posts. This real-world imbalance highlights a core challenge that needs to be addressed for practical deployment. Our study re-evaluates well-established methods for detecting controversial content. We curate our own dataset focusing on the Indian political context that preserves the natural distribution of controversial content, with only 12.9% of the posts in our dataset being controversial. This disparity reflects the true imbalance in real-world political discussions and highlights a critical limitation in the existing evaluation methods. Benchmarking on datasets that model data imbalance is vital for ensuring real-world applicability. Thus, in this work, (i) we release our dataset, with an emphasis on class imbalance, that focuses on the Indian political context, (ii) we evaluate existing methods from this domain on this dataset and demonstrate their limitations in the imbalanced setting, (iii) we introduce an intuitive metric to measure a model's robustness to class imbalance, (iv) we also incorporate ideas from the domain of Topological Data Analysis, specifically Persistent Homology, to curate features that provide richer representations of the data. Furthermore, we benchmark models trained with topological features against established baselines.
Using CognitIDE to Capture Developers' Cognitive Load via Physiological Activity During Everyday Software Development Tasks
Venue: arXiv cs.SE 2025
Year: 2025

Integrated development environments (IDE) support developers in a variety of tasks. Unobtrusively capturing developers' cognitive load while working on different programming tasks could help optimize developers' work experience, increase their productivity, and positively impact code quality. In this paper, we propose a study in which the IntelliJ-based IDE plugin CognitIDE is used to collect, map, and visualize software developers' physiological activity data while they are working on various software development tasks. In a feasibility study, participants completed four simulated everyday working tasks of software developers - coding, debugging, code documentation, and email writing - based on Java open source code in the IDE whilst their physiological activity was recorded. Between the tasks, the participants' perceived workload was assessed. Feasibility testing showed that CognitIDE could successfully be used for data collection sessions of one hour, which was the most extended duration tested and was well-perceived by those working with it. Furthermore, the recorded physiological activity indicated higher cognitive load during working tasks compared to baseline recordings. This suggests that cognitive load can be assessed, mapped to code positions, visualized, and discussed with participants in such study setups with CognitIDE. These promising results indicate the usefulness of the plugin for diverse study workflows in a natural IDE environment.
PowerAttention: Exponentially Scaling of Receptive Fields for Effective Sparse Attention
Venue: arXiv cs.CL 2025
Year: 2025

Large Language Models (LLMs) face efficiency bottlenecks due to the quadratic complexity of the attention mechanism when processing long contexts. Sparse attention methods offer a promising solution, but existing approaches often suffer from incomplete effective context and/or require complex implementation of pipeline. We present a comprehensive analysis of sparse attention for autoregressive LLMs from the respective of receptive field, recognize the suboptimal nature of existing methods for expanding the receptive field, and introduce PowerAttention, a novel sparse attention design that facilitates effective and complete context extension through the theoretical analysis. PowerAttention achieves exponential receptive field growth in $d$-layer LLMs, allowing each output token to attend to $2^d$ tokens, ensuring completeness and continuity of the receptive field. Experiments demonstrate that PowerAttention outperforms existing static sparse attention methods by $5\sim 40\%$, especially on tasks demanding long-range dependencies like Passkey Retrieval and RULER, while maintaining a comparable time complexity to sliding window attention. Efficiency evaluations further highlight PowerAttention's superior speedup in both prefilling and decoding phases compared with dynamic sparse attentions and full attention ($3.0\times$ faster on 128K context), making it a highly effective and user-friendly solution for processing long sequences in LLMs.
Small but Mighty: Enhancing Time Series Forecasting with Lightweight LLMs
Venue: arXiv cs.CL 2025
Year: 2025

While LLMs have demonstrated remarkable potential in time series forecasting, their practical deployment remains constrained by excessive computational demands and memory footprints. Existing LLM-based approaches typically suffer from three critical limitations: Inefficient parameter utilization in handling numerical time series patterns; Modality misalignment between continuous temporal signals and discrete text embeddings; and Inflexibility for real-time expert knowledge integration. We present SMETimes, the first systematic investigation of sub-3B parameter SLMs for efficient and accurate time series forecasting. Our approach centers on three key innovations: A statistically-enhanced prompting mechanism that bridges numerical time series with textual semantics through descriptive statistical features; A adaptive fusion embedding architecture that aligns temporal patterns with language model token spaces through learnable parameters; And a dynamic mixture-of-experts framework enabled by SLMs' computational efficiency, adaptively combining base predictions with domain-specific models. Extensive evaluations across seven benchmark datasets demonstrate that our 3B-parameter SLM achieves state-of-the-art performance on five primary datasets while maintaining 3.8x faster training and 5.2x lower memory consumption compared to 7B-parameter LLM baselines. Notably, the proposed model exhibits better learning capabilities, achieving 12.3% lower MSE than conventional LLM. Ablation studies validate that our statistical prompting and cross-modal fusion modules respectively contribute 15.7% and 18.2% error reduction in long-horizon forecasting tasks. By redefining the efficiency-accuracy trade-off landscape, this work establishes SLMs as viable alternatives to resource-intensive LLMs for practical time series forecasting. Code and models are available at https://github.com/xiyan1234567/SMETimes.
TeraSim: Uncovering Unknown Unsafe Events for Autonomous Vehicles through Generative Simulation
Venue: arXiv cs.RO 2025
Year: 2025

Traffic simulation is essential for autonomous vehicle (AV) development, enabling comprehensive safety evaluation across diverse driving conditions. However, traditional rule-based simulators struggle to capture complex human interactions, while data-driven approaches often fail to maintain long-term behavioral realism or generate diverse safety-critical events. To address these challenges, we propose TeraSim, an open-source, high-fidelity traffic simulation platform designed to uncover unknown unsafe events and efficiently estimate AV statistical performance metrics, such as crash rates. TeraSim is designed for seamless integration with third-party physics simulators and standalone AV stacks, to construct a complete AV simulation system. Experimental results demonstrate its effectiveness in generating diverse safety-critical events involving both static and dynamic agents, identifying hidden deficiencies in AV systems, and enabling statistical performance evaluation. These findings highlight TeraSim's potential as a practical tool for AV safety assessment, benefiting researchers, developers, and policymakers. The code is available at https://github.com/mcity/TeraSim.
L2RDaS: Synthesizing 4D Radar Tensors for Model Generalization via Dataset Expansion
Venue: arXiv cs.CV 2025
Year: 2025

4-dimensional (4D) radar is increasingly adopted in autonomous driving for perception tasks, owing to its robustness under adverse weather conditions. To better utilize the spatial information inherent in 4D radar data, recent deep learning methods have transitioned from using sparse point cloud to 4D radar tensors. However, the scarcity of publicly available 4D radar tensor datasets limits model generalization across diverse driving scenarios. Previous methods addressed this by synthesizing radar data, but the outputs did not fully exploit the spatial information characteristic of 4D radar. To overcome these limitations, we propose LiDAR-to-4D radar data synthesis (L2RDaS), a framework that synthesizes spatially informative 4D radar tensors from LiDAR data available in existing autonomous driving datasets. L2RDaS integrates a modified U-Net architecture to effectively capture spatial information and an object information supplement (OBIS) module to enhance reflection fidelity. This framework enables the synthesis of radar tensors across diverse driving scenarios without additional sensor deployment or data collection. L2RDaS improves model generalization by expanding real datasets with synthetic radar tensors, achieving an average increase of 4.25\% in ${{AP}_{BEV}}$ and 2.87\% in ${{AP}_{3D}}$ across three detection models. Additionally, L2RDaS supports ground-truth augmentation (GT-Aug) by embedding annotated objects into LiDAR data and synthesizing them into radar tensors, resulting in further average increases of 3.75\% in ${{AP}_{BEV}}$ and 4.03\% in ${{AP}_{3D}}$. The implementation will be available at https://github.com/kaist-avelab/K-Radar.
Does More Bandwidth Really Not Matter (Much)?
Venue: arXiv cs.NI 2025
Year: 2025

The prevailing wisdom is that more network bandwidth does not matter much and that website performance is primarily limited by network latency. However, as mobile websites become more complex and mobile network performance improves, does this adage continue to hold? To understand the effects of small changes in network bandwidth and latency on website performance, we propose a novel webpage characterization metrics, Critical Path of Improvement (CPI). We compute CPI for 45 websites and analyze it against the network performance of four mobile ISPs in 57 US cities. Our results show that 18% of websites are primarily limited by bandwidth with others limited by bandwidth to some extent. These results show that contrary to accepted wisdom, insufficient bandwidth is a limiting factor in some website/network combinations. We also offer a discussion of approaches website developers and mobile network administrators can follow to understand and mitigate bandwidth limitations to website performance.
A Generative Approach to High Fidelity 3D Reconstruction from Text Data
Venue: arXiv cs.CV 2025
Year: 2025

The convergence of generative artificial intelligence and advanced computer vision technologies introduces a groundbreaking approach to transforming textual descriptions into three-dimensional representations. This research proposes a fully automated pipeline that seamlessly integrates text-to-image generation, various image processing techniques, and deep learning methods for reflection removal and 3D reconstruction. By leveraging state-of-the-art generative models like Stable Diffusion, the methodology translates natural language inputs into detailed 3D models through a multi-stage workflow. The reconstruction process begins with the generation of high-quality images from textual prompts, followed by enhancement by a reinforcement learning agent and reflection removal using the Stable Delight model. Advanced image upscaling and background removal techniques are then applied to further enhance visual fidelity. These refined two-dimensional representations are subsequently transformed into volumetric 3D models using sophisticated machine learning algorithms, capturing intricate spatial relationships and geometric characteristics. This process achieves a highly structured and detailed output, ensuring that the final 3D models reflect both semantic accuracy and geometric precision. This approach addresses key challenges in generative reconstruction, such as maintaining semantic coherence, managing geometric complexity, and preserving detailed visual information. Comprehensive experimental evaluations will assess reconstruction quality, semantic accuracy, and geometric fidelity across diverse domains and varying levels of complexity. By demonstrating the potential of AI-driven 3D reconstruction techniques, this research offers significant implications for fields such as augmented reality (AR), virtual reality (VR), and digital content creation.
Optimally Installing Strict Equilibria
Venue: arXiv cs.GT 2025
Year: 2025

In this work, we develop a reward design framework for installing a desired behavior as a strict equilibrium across standard solution concepts: dominant strategy equilibrium, Nash equilibrium, correlated equilibrium, and coarse correlated equilibrium. We also extend our framework to capture the Markov-perfect equivalents of each solution concept. Central to our framework is a comprehensive mathematical characterization of strictly installable, based on the desired solution concept and the behavior's structure. These characterizations lead to efficient iterative algorithms, which we generalize to handle optimization objectives through linear programming. Finally, we explore how our results generalize to bounded rational agents.
Quantification of Tenseness in English and Japanese Tense-Lax Vowels: A Lagrangian Model with Indicator θ1 and Force of Tenseness Ftense(t)
Venue: arXiv cs.CL 2025
Year: 2025

The concept of vowel tenseness has traditionally been examined through the binary distinction of tense and lax vowels. However, no universally accepted quantitative definition of tenseness has been established in any language. Previous studies, including those by Jakobson, Fant, and Halle (1951) and Chomsky and Halle (1968), have explored the relationship between vowel tenseness and the vocal tract. Building on these foundations, Ishizaki (2019, 2022) proposed an indirect quantification of vowel tenseness using formant angles θ1 and θF1 and their first and second derivatives, dZ1(t)/dt = lim tan θ1(t) and d2Z1(t)/dt2 = d/dt lim tan θ1(t). This study extends this approach by investigating the potential role of a force-related parameter in determining vowel quality. Specifically, we introduce a simplified model based on the Lagrangian equation to describe the dynamic interaction of the tongue and jaw within the oral cavity during the articulation of close vowels. This model provides a theoretical framework for estimating the forces involved in vowel production across different languages, offering new insights into the physical mechanisms underlying vowel articulation. The findings suggest that this force-based perspective warrants further exploration as a key factor in phonetic and phonological studies.
Enhancing LLM Knowledge Learning through Generalization
Venue: arXiv cs.CL 2025
Year: 2025

As Large language models (LLMs) are increasingly deployed in diverse applications, faithfully integrating evolving factual knowledge into these models remains a critical challenge. Continued pre-training on paraphrased data has shown empirical promise for enhancing knowledge acquisition. However, this approach is often costly and unreliable, as it relies on external models or manual effort for rewriting, and may inadvertently alter the factual content. In this work, we hypothesize and empirically show that an LLM's ability to continually predict the same factual knowledge tokens given diverse paraphrased contexts is positively correlated with its capacity to extract that knowledge via question-answering. Based on this view and aiming to improve generalization to diverse paraphrased contexts, we introduce two strategies to enhance LLMs' ability to predict the same knowledge tokens given varied contexts, thereby enhancing knowledge acquisition. First, we propose formatting-based data augmentation, which diversifies documents conveying the same knowledge by altering document formats rather than their content, thereby preserving factual integrity. Second, we adopt sharpness-aware minimization as the optimizer to better improve generalization. Extensive experiments demonstrate our methods' effectiveness in both continued pre-training and instruction tuning, and further gains can be achieved by combining with paraphrased data.
Graph-Augmented LSTM for Forecasting Sparse Anomalies in Graph-Structured Time Series
Venue: arXiv cs.LG 2025
Year: 2025

Detecting anomalies in time series data is a critical task across many domains. The challenge intensifies when anomalies are sparse and the data are multivariate with relational dependencies across sensors or nodes. Traditional univariate anomaly detectors struggle to capture such cross-node dependencies, particularly in sparse anomaly settings. To address this, we propose a graph-augmented time series forecasting approach that explicitly integrates the graph of relationships among time series into an LSTM forecasting model. This enables the model to detect rare anomalies that might otherwise go unnoticed in purely univariate approaches. We evaluate the approach on two benchmark datasets - the Yahoo Webscope S5 anomaly dataset and the METR-LA traffic sensor network - and compare the performance of the Graph-Augmented LSTM against LSTM-only, ARIMA, and Prophet baselines. Results demonstrate that the graph-augmented model achieves significantly higher precision and recall, improving F1-score by up to 10% over the best baseline
PacketCLIP: Multi-Modal Embedding of Network Traffic and Language for Cybersecurity Reasoning
Venue: arXiv cs.CR 2025
Year: 2025

Traffic classification is vital for cybersecurity, yet encrypted traffic poses significant challenges. We present PacketCLIP, a multi-modal framework combining packet data with natural language semantics through contrastive pretraining and hierarchical Graph Neural Network (GNN) reasoning. PacketCLIP integrates semantic reasoning with efficient classification, enabling robust detection of anomalies in encrypted network flows. By aligning textual descriptions with packet behaviors, it offers enhanced interpretability, scalability, and practical applicability across diverse security scenarios. PacketCLIP achieves a 95% mean AUC, outperforms baselines by 11.6%, and reduces model size by 92%, making it ideal for real-time anomaly detection. By bridging advanced machine learning techniques and practical cybersecurity needs, PacketCLIP provides a foundation for scalable, efficient, and interpretable solutions to tackle encrypted traffic classification and network intrusion detection challenges in resource-constrained environments.
Multimodal Generative AI and Foundation Models for Behavioural Health in Online Gambling
Venue: arXiv cs.CY 2025
Year: 2025

Online gambling platforms have transformed the gambling landscape, offering unprecedented accessibility and personalized experiences. However, these same characteristics have increased the risk of gambling-related harm, affecting individuals, families, and communities. Structural factors, including targeted marketing, shifting social norms, and gaps in regulation, further complicate the challenge. This narrative review examines how artificial intelligence, particularly multimodal generative models and foundation technologies, can address these issues by supporting prevention, early identification, and harm-reduction efforts. We detail applications such as synthetic data generation to overcome research barriers, customized interventions to guide safer behaviors, gamified tools to support recovery, and scenario modeling to inform effective policies. Throughout, we emphasize the importance of safeguarding privacy and ensuring that technological advances are responsibly aligned with public health objectives.
VoiceGRPO: Modern MoE Transformers with Group Relative Policy Optimization GRPO for AI Voice Health Care Applications on Voice Pathology Detection
Venue: arXiv cs.SD 2025
Year: 2025

This research introduces a novel AI techniques as Mixture-of-Experts Transformers with Group Relative Policy Optimization (GRPO) for voice health care applications on voice pathology detection. With the architectural innovations, we adopt advanced training paradigms inspired by reinforcement learning, namely Proximal Policy Optimization (PPO) and Group-wise Regularized Policy Optimization (GRPO), to enhance model stability and performance. Experiments conducted on a synthetically generated voice pathology dataset demonstrate that our proposed models significantly improve diagnostic accuracy, F1 score, and ROC-AUC compared to conventional approaches. These findings underscore the potential of integrating transformer architectures with novel training strategies to advance automated voice pathology detection and ultimately contribute to more effective healthcare delivery. The code we used to train and evaluate our models is available at https://github.com/enkhtogtokh/voicegrpo
Are Cognitive Biases as Important as they Seem for Data Visualization?
Venue: arXiv cs.HC 2025
Year: 2025

Research on cognitive biases and heuristics has become increasingly popular in the visualization literature in recent years. Researchers have studied the effects of biases on visualization interpretation and subsequent decision-making. While this work is important, we contend that the view on biases has presented human cognitive abilities in an unbalanced manner, placing too much emphasis on the flaws and limitations of human decision-making, and potentially suggesting that it should not be trusted. Several decision researchers have argued that the flip side of biases -- i.e., mental shortcuts or heuristics -- demonstrate human ingenuity and serve as core markers of adaptive expertise. In this paper, we review the perspectives and sentiments of the visualization community on biases and describe literature arguing for more balanced views of biases and heuristics. We hope this paper will encourage visualization researchers to consider a fuller picture of human cognitive limitations and strategies for making decisions in complex environments.